3TLZ

Microcin C7 self immunity protein MccF mutant W186F in complex with Adenosine Monophosphate


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3TLAPDB ENTRY 3TLA

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION7.52820.1M HEPES pH 7.5, 10% PEG 8000, 8% Ethylene Glycol, vapor diffusion, temperature 282K, VAPOR DIFFUSION
Crystal Properties
Matthews coefficientSolvent content
2.1242

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 54.553α = 90
b = 90.189β = 101.38
c = 73.322γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-rayCCDMARMOSAIC 300 mm CCD2010-06-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-DAPS21-ID-D

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.4771.897.80.0670.06538.0945.3115009
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.471.5950.2610.2365.5934.7

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 3TLA1.525103446545298.020.174050.173070.19272RANDOM18.818
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-0.62-0.461.57-1.13
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.989
r_dihedral_angle_4_deg15.65
r_dihedral_angle_3_deg10.803
r_dihedral_angle_1_deg5.239
r_scangle_it1.718
r_angle_refined_deg1.015
r_scbond_it1.006
r_mcangle_it0.609
r_angle_other_deg0.426
r_mcbond_it0.302
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.989
r_dihedral_angle_4_deg15.65
r_dihedral_angle_3_deg10.803
r_dihedral_angle_1_deg5.239
r_scangle_it1.718
r_angle_refined_deg1.015
r_scbond_it1.006
r_mcangle_it0.609
r_angle_other_deg0.426
r_mcbond_it0.302
r_chiral_restr0.068
r_mcbond_other0.065
r_bond_refined_d0.006
r_gen_planes_refined0.003
r_bond_other_d0.001
r_gen_planes_other
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5246
Nucleic Acid Atoms
Solvent Atoms985
Heterogen Atoms70

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction